Bioconductor Lfcthreshold

Showing : lfcthreshold • reset

votes

replies

2.6k

views

DESeq2 lfcThreshold

3.4 years ago Abir.khazaal ▴ 10

vote

replies

3.3k

views

lfcshrink DESeq2 RNASeq lfcthreshold

3.5 years ago ClaudiaE • 0

votes

replies

3.2k

views

ashr Deseq2 lfcThreshold

updated 4.3 years ago by Michael Love 43k • written 5.7 years ago by Iryna • 0

votes

replies

10k

views

deseq2 differential expression logfoldchange lfcshrink lfcthreshold

updated 4.7 years ago by Michael Love 43k • written 7.6 years ago by emi.sch ▴ 50

votes

1.6k

views

deseq2 lfcshrink lfcthreshold differential gene expression

updated 7.2 years ago by Michael Love 43k • written 7.2 years ago by corentinrichard374369 • 0

vote

replies

3.0k

views

DESeq2 lfcThreshold

updated 7.8 years ago by Michael Love 43k • written 7.8 years ago by Mike ▴ 10

votes

replies

7.1k

views

lfcthreshold deseq2

updated 8.1 years ago by Michael Love 43k • written 8.1 years ago by lirongrossmann ▴ 80

votes

3.8k

views

deseq2 microrna lfcThreshold stable expression ffpe

updated 10.2 years ago by Michael Love 43k • written 10.3 years ago by mariakarand ▴ 20

8 results • Page 1 of 1

Recent ...

Replies

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0

Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…

Comment: Combining two proteomics datasets with limpa by Andrew Pattison • 0

Thanks heaps Gordon. I went with option 1 and no normalisation and all seems to have worked well. Cheers, Andrew

Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k

Flagging protein groups as likely contaminants in this way will be fine for a limpa analysis. The `Cont_` proteins can optionally stay in f…

Answer: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Gordon Smyth 53k

Aaron Lun was a PhD student in my Lab back in 2015, when he posted the answers about allele-specific expression that you and Mike Love have…

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Michael Love 43k

You just need the mouse identifier (controls baseline) and the group specific allelic effect.

Votes

A: DESeq2: Is it possible to convert read counts to expression values via TPM and r

A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen

Comment: limpa analysis advice

Answer: When to use edgeR or limma

Awards • All